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FlyAtlas: the Drosophila gene expression atlas

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Biotechnology & Biological Sciences Research Council
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Latest news: FlyAtlas2 : A Database web-app for fruitfly expression with added RNA & miRNA goodness ! Click here to visit the application. Read all about it here.


This dataset was generated by Venkat Chintapalli, Jing Wang & Julian Dow at the University of Glasgow with funding from the UK's BBSRC.
It gives you a quick answer to the question: where is my gene of interest expressed/enriched in the adult fly?
For each gene & tissue, you're given the mRNA SIGNAL (how abundant the mRNA is), the mRNA ENRICHMENT (compared to whole flies), and the Affymetrix PRESENT CALL (out of 4 arrays, how many times it was detectably expressed).

String to look for? (e.g. vha, cell adhesion, receptor, aquaporin, adenylate, CG1147, pnt)


Searching for FBGN0004913 through 18771 annotations produced 2 hits



germline transcription factor /// ribosomal protein S3 (Gnf1 /// RpS3):

Annotation Number : CG6779
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : FBgn0002622
Gbrowse : chr3R:19184524-19185697 (+) // 100.0 //
Probeset : 1632269_at
Accessions : protein= NP_001014605; /// NP_476632; /// NP_524229;, nucleotide= NM_001014605; /// NM_057284; /// NM_079505;
Pathway : 0005622 // intracellular // inferred from electronic annotation /// 0005634 // nucleus // inferred from direct assay ///
Interpro : 0000166 // nucleotide binding // inferred from electronic annotation /// 0003677 // DNA binding // inferred from direct
FlyMine data for FBgn0002622.
BDGP gene expression has embryonic in situ data for RpS3: 4 pix of staining in 1 body parts.
BioGrid reports that CG6779 interacts with CG6864 CG7109 CG7264 CG7628 CG7787 CG7860 CG8368 CG8506 CG8674 CG8942 CG9163 CG9373 CG9424 CG9654 CG9665 CG3619 CG2759 CG2759 CG7803 .
TRiP has 2 RNAi stocks for FBgn0002622 available for purchase.
VDRC has 3 RNAi stocks for FBgn0002622 available for purchase.


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain2960 474 of 4 0.70Down
Head4531 1684 of 4 1.10None
Eye6342 714 of 4 1.57Up
Thoracicoabdominal ganglion4108 1004 of 4 1.00None
Salivary gland10420 2934 of 4 2.59Up
Crop6041 3634 of 4 1.50Up
Midgut5101 1234 of 4 1.30Up
Tubule5126 364 of 4 1.30Up
Hindgut5112 1294 of 4 1.30Up
Heart6552 4794 of 4 1.63Up
Fat body5215 5814 of 4 1.29Up
Ovary3341 664 of 4 0.80None
Testis1222 264 of 4 0.30Down
Male accessory glands9099 2814 of 4 2.30Up
Virgin spermatheca5559 1784 of 4 1.38Up
Mated spermatheca5621 1924 of 4 1.40Up
Adult carcass5721 3204 of 4 1.40Up
Larval CNS2603 1564 of 4 0.65Down
Larval Salivary gland7284 3494 of 4 1.81Up
Larval midgut4373 894 of 4 1.09None
Larval tubule4934 814 of 4 1.20Up
Larval hindgut4203 114 of 4 1.04None
Larval fat body7686 8464 of 4 1.90Up
Larval trachea5937 2224 of 4 1.47Up
Larval carcass4340 2774 of 4 1.08None
S2 cells (growing)4493 704 of 4 1.11None
Whole fly4030 2414 of 4



germline transcription factor (Gnf1):

Annotation Number : CG1119
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : FBgn0004913
Gbrowse : chr3R:732347-735803 (+) // 100.0 //
Probeset : 1623086_at
Accessions : protein= NP_001014605; /// NP_524229;, nucleotide= NM_001014605; /// NM_079505;
Pathway : 0005622 // intracellular // inferred from electronic annotation /// 0005634 // nucleus // inferred from direct assay ///
Interpro : 0000166 // nucleotide binding // inferred from electronic annotation /// 0003677 // DNA binding // inferred from direct
FlyMine data for FBgn0004913.
BDGP gene expression has embryonic in situ data for RpS3: 14 pix of staining in 14 body parts.
TRiP has 1 RNAi stocks for FBgn0004913 available for purchase.
VDRC has 2 RNAi stocks for FBgn0004913 available for purchase.


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain87 34 of 4 0.40Down
Head65 14 of 4 0.30Down
Eye68 34 of 4 0.34Down
Thoracicoabdominal ganglion84 24 of 4 0.40Down
Salivary gland95 34 of 4 0.48Down
Crop77 84 of 4 0.40Down
Midgut36 44 of 4 0.20Down
Tubule73 34 of 4 0.40Down
Hindgut60 34 of 4 0.30Down
Heart62 24 of 4 0.31Down
Fat body62 94 of 4 0.32Down
Ovary387 44 of 4 1.90Up
Testis175 64 of 4 0.90None
Male accessory glands83 44 of 4 0.40Down
Virgin spermatheca49 34 of 4 0.25Down
Mated spermatheca51 54 of 4 0.26Down
Adult carcass70 14 of 4 0.40Down
Larval CNS206 44 of 4 1.04None
Larval Salivary gland101 24 of 4 0.51Down
Larval midgut50 34 of 4 0.25Down
Larval tubule64 14 of 4 0.30Down
Larval hindgut79 44 of 4 0.40Down
Larval fat body70 74 of 4 0.40Down
Larval trachea153 64 of 4 0.77None
Larval carcass97 14 of 4 0.49Down
S2 cells (growing)187 114 of 4 0.95None
Whole fly198 194 of 4

Looking for FBgn0004913. 2 entries matched from 18771, in 1 s.


Chintapalli, V. R., Wang, J. and Dow, J. A. T. (2007). Using FlyAtlas to identify better Drosophila models of human disease. Nature Genetics 39: 715-720

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